Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 56 of 113
Found at i:14069236 original size:118 final size:118
Alignment explanation
Indices: 14069035--14069267 Score: 312
Period size: 118 Copynumber: 2.0 Consensus size: 118
14069025 AATTTTAAAA
* *
14069035 AAAATTGATACTTTCAACTTTTTCTTAAAAATACCTTTTTTGAAATTTTTATTTTCAAGAAAAAA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAATA-C-TTTTTGAAATTTTTATTTTCAAGAAAAAA
* ** *
14069100 TGGTACTTTCAACTTTTCCTTGAAAAT-ATTTTTTTTGAAATTTTTATTTTCAACG
64 TGATACTTTCAACTTTTCCTCAAAAATGA-TTTTTTTGAAATCTTTATTTTCAACG
* *
14069155 AAAATTGATACTTTCAACTTTTCCTAAAAAATGA-TTTTTGAAATTTTTATTTTCAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTAAAAAAT-ACTTTTTGAAATTTTTATTTTCAAGAAAAAAT
14069219 GATA-TTGTCAA-TGTTTCCTCAAAAATGATTTTTTTGAAATCTTTATTTT
65 GATACTT-TCAACT-TTTCCTCAAAAATGATTTTTTTGAAATCTTTATTTT
14069268 AAAGAGATCA
Statistics
Matches: 101, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
117 3 0.03
118 66 0.65
119 1 0.01
120 30 0.30
121 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.48
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAAATACTTTTTGAAATTTTTATTTTCAAGAAAAAATG
ATACTTTCAACTTTTCCTCAAAAATGATTTTTTTGAAATCTTTATTTTCAACG
Found at i:14069684 original size:20 final size:20
Alignment explanation
Indices: 14069659--14069697 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14069649 TCAAACTGCT
14069659 TCTTCT-ATTCCTCTCTCTAC
1 TCTTCTGATT-CTCTCTCTAC
*
14069679 TCTTCTGCTTCTCTCTCTA
1 TCTTCTGATTCTCTCTCTA
14069698 GACAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51
Consensus pattern (20 bp):
TCTTCTGATTCTCTCTCTAC
Found at i:14070065 original size:6 final size:7
Alignment explanation
Indices: 14070039--14070064 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14070029 GGATTATGTG
14070039 CAAAAAT
1 CAAAAAT
14070046 CAAAAAT
1 CAAAAAT
14070053 CAAAAAT
1 CAAAAAT
14070060 CAAAA
1 CAAAA
14070065 TTCCTTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (7 bp):
CAAAAAT
Found at i:14070786 original size:34 final size:32
Alignment explanation
Indices: 14070748--14070830 Score: 76
Period size: 34 Copynumber: 2.4 Consensus size: 32
14070738 TGCAATTCAA
* *
14070748 AGATTCACAGGATTCAAAAATTCATAAAAATTTC
1 AGATTCA-AGAATT-AAAAATTCACAAAAATTTC
* *
14070782 AGATTTGCAAGAATTGAAGATTCACAAAAATTTC
1 AGA-TT-CAAGAATTAAAAATTCACAAAAATTTC
14070816 AGATTCGTAAGAATT
1 AGATTC--AAGAATT
14070831 TGAGATTCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
32 1 0.02
33 2 0.05
34 29 0.71
35 7 0.17
36 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (32 bp):
AGATTCAAGAATTAAAAATTCACAAAAATTTC
Found at i:14070819 original size:17 final size:17
Alignment explanation
Indices: 14070767--14070821 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
14070757 GGATTCAAAA
*
14070767 ATTCATAAAAATTTCAG
1 ATTCACAAAAATTTCAG
** * **
14070784 ATTTGCAAGAATTGAAG
1 ATTCACAAAAATTTCAG
14070801 ATTCACAAAAATTTCAG
1 ATTCACAAAAATTTCAG
14070818 ATTC
1 ATTC
14070822 GTAAGAATTT
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (17 bp):
ATTCACAAAAATTTCAG
Found at i:14070830 original size:17 final size:17
Alignment explanation
Indices: 14070776--14070963 Score: 99
Period size: 17 Copynumber: 11.0 Consensus size: 17
14070766 AATTCATAAA
*
14070776 AATTTCAGATTTGCAAG
1 AATTTCAGATTCGCAAG
** * *
14070793 AATTGAAGATTCACAAA
1 AATTTCAGATTCGCAAG
*
14070810 AATTTCAGATTCGTAAG
1 AATTTCAGATTCGCAAG
* *
14070827 AATTTGAGATTCGTAAG
1 AATTTCAGATTCGCAAG
** * *
14070844 TTTTTCAAATTCGCAAA
1 AATTTCAGATTCGCAAG
**
14070861 AATTGAAGATTCGCAAG
1 AATTTCAGATTCGCAAG
** * *
14070878 GCTTTCAAATTCACAAG
1 AATTTCAGATTCGCAAG
* ** * *
14070895 AAATGAATATTCGCAAA
1 AATTTCAGATTCGCAAG
*
14070912 AACTTTTAGATTCGCAAG
1 AA-TTTCAGATTCGCAAG
** *
14070930 AATTGAAGATTCACAA-
1 AATTTCAGATTCGCAAG
*
14070946 AGTTTTCAGATTCGCAAG
1 A-ATTTCAGATTCGCAAG
14070964 GCTTTTAGAT
Statistics
Matches: 119, Mismatches: 49, Indels: 5
0.69 0.28 0.03
Matches are distributed among these distances:
16 1 0.01
17 106 0.89
18 12 0.10
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (17 bp):
AATTTCAGATTCGCAAG
Found at i:14070837 original size:34 final size:34
Alignment explanation
Indices: 14070767--14070963 Score: 171
Period size: 34 Copynumber: 5.8 Consensus size: 34
14070757 GGATTCAAAA
* *
14070767 ATTCATAAAAATTTCAGATTTGCAAGAATTGAAG
1 ATTCACAAAAATTTCAGATTCGCAAGAATTGAAG
*
14070801 ATTCACAAAAATTTCAGATTCGTAAGAATTTG-AG
1 ATTCACAAAAATTTCAGATTCGCAAGAA-TTGAAG
** *** * *
14070835 ATTCGTAAGTTTTTCAAATTCGCAAAAATTGAAG
1 ATTCACAAAAATTTCAGATTCGCAAGAATTGAAG
* *** * * * *
14070869 ATTCGCAAGGCTTTCAAATTCACAAGAAATGAAT
1 ATTCACAAAAATTTCAGATTCGCAAGAATTGAAG
* *
14070903 ATTCGCAAAAACTTTTAGATTCGCAAGAATTGAAG
1 ATTCACAAAAA-TTTCAGATTCGCAAGAATTGAAG
**
14070938 ATTCACAAAGTTTTCAGATTCGCAAG
1 ATTCACAAAAATTTCAGATTCGCAAG
14070964 GCTTTTAGAT
Statistics
Matches: 130, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
33 3 0.02
34 98 0.75
35 29 0.22
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (34 bp):
ATTCACAAAAATTTCAGATTCGCAAGAATTGAAG
Found at i:14070973 original size:17 final size:17
Alignment explanation
Indices: 14070914--14070974 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
14070904 TTCGCAAAAA
*
14070914 CTTTTAGATTCGCAAGA
1 CTTTTAGATTCGCAAGG
* ** * *
14070931 ATTGAAGATTCACAAAG
1 CTTTTAGATTCGCAAGG
14070948 -TTTTCAGATTCGCAAGG
1 CTTTT-AGATTCGCAAGG
14070965 CTTTTAGATT
1 CTTTTAGATT
14070975 TGTAAAAATT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
16 2 0.06
17 26 0.81
18 4 0.12
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (17 bp):
CTTTTAGATTCGCAAGG
Found at i:14070991 original size:34 final size:34
Alignment explanation
Indices: 14070953--14071089 Score: 105
Period size: 34 Copynumber: 4.0 Consensus size: 34
14070943 CAAAGTTTTC
***
14070953 AGATTCGCAAGGCTTTTAGATTTGTAAAAATT-A
1 AGATTCGCAAGGCTTTTAGATTCACAAAAATTGA
* * * *
14070986 GAGATTCGTAAAGTTTTTAGATTCACAAGAATTGA
1 -AGATTCGCAAGGCTTTTAGATTCACAAAAATTGA
* * ** * *
14071021 AGATTCGCAAGGCTTTCAAATTGGCAAGAATTGG
1 AGATTCGCAAGGCTTTTAGATTCACAAAAATTGA
* * * *
14071055 AGATTCACAAAGTTTTTAGATTCACAAGAATTGA
1 AGATTCGCAAGGCTTTTAGATTCACAAAAATTGA
14071089 A
1 A
14071090 AAAACTTCTA
Statistics
Matches: 79, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
34 78 0.99
35 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (34 bp):
AGATTCGCAAGGCTTTTAGATTCACAAAAATTGA
Found at i:14070991 original size:51 final size:51
Alignment explanation
Indices: 14070914--14071014 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
14070904 TTCGCAAAAA
* *
14070914 CTTTTAGATTCGCAAGAATTGAAGATTCACAAAGTTTTCAGATTCGCAAGG
1 CTTTTAGATTCGCAAAAATTGAAGATTCACAAAGTTTTCAGATTCACAAGG
* * ** *
14070965 CTTTTAGATTTGTAAAAATT-AGAGATTCGTAAAGTTTTTAGATTCACAAG
1 CTTTTAGATTCGCAAAAATTGA-AGATTCACAAAGTTTTCAGATTCACAAG
14071015 AATTGAAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (51 bp):
CTTTTAGATTCGCAAAAATTGAAGATTCACAAAGTTTTCAGATTCACAAGG
Found at i:14071007 original size:17 final size:17
Alignment explanation
Indices: 14070944--14071009 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
14070934 GAAGATTCAC
* *
14070944 AAAGTTTTCAGATTCGC
1 AAAGTTTTTAGATTCGT
* * *
14070961 AAGGCTTTTAGATTTGT
1 AAAGTTTTTAGATTCGT
** **
14070978 AAAAATTAGAGATTCGT
1 AAAGTTTTTAGATTCGT
14070995 AAAGTTTTTAGATTC
1 AAAGTTTTTAGATTC
14071010 ACAAGAATTG
Statistics
Matches: 34, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (17 bp):
AAAGTTTTTAGATTCGT
Found at i:14071010 original size:68 final size:69
Alignment explanation
Indices: 14070936--14071089 Score: 188
Period size: 68 Copynumber: 2.3 Consensus size: 69
14070926 CAAGAATTGA
* ** * * * * **
14070936 AGATTCACAAAG-TTTTCAGATTCGCAAGGCTTTTAGATTTGTAAAAATTAGAGATTCGTAAAGT
1 AGATTCACAAAGAATTGAAGATTCGCAAGGCTTTCAAATTGGCAAAAATTAGAGATTCACAAAGT
14071000 TTTT
66 TTTT
* *
14071004 AGATTCAC-AAGAATTGAAGATTCGCAAGGCTTTCAAATTGGCAAGAATTGGAGATTCACAAAGT
1 AGATTCACAAAGAATTGAAGATTCGCAAGGCTTTCAAATTGGCAAAAATTAGAGATTCACAAAGT
14071068 TTTT
66 TTTT
14071072 AGATTCAC-AAGAATTGAA
1 AGATTCACAAAGAATTGAA
14071090 AAAACTTCTA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
67 3 0.04
68 71 0.96
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (69 bp):
AGATTCACAAAGAATTGAAGATTCGCAAGGCTTTCAAATTGGCAAAAATTAGAGATTCACAAAGT
TTTT
Found at i:14071024 original size:17 final size:17
Alignment explanation
Indices: 14071004--14071089 Score: 50
Period size: 17 Copynumber: 5.1 Consensus size: 17
14070994 TAAAGTTTTT
14071004 AGATTCACAAGAATTGA
1 AGATTCACAAGAATTGA
* ** *
14071021 AGATTCGCAAGGCTTTCA
1 AGATTCACAA-GAATTGA
** *
14071039 A-ATTGGCAAGAATTGG
1 AGATTCACAAGAATTGA
* **
14071055 AGATTCACAA-AGTTTTT
1 AGATTCACAAGA-ATTGA
14071072 AGATTCACAAGAATTGA
1 AGATTCACAAGAATTGA
14071089 A
1 A
14071090 AAAACTTCTA
Statistics
Matches: 48, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
16 5 0.10
17 37 0.77
18 6 0.12
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (17 bp):
AGATTCACAAGAATTGA
Found at i:14072278 original size:17 final size:16
Alignment explanation
Indices: 14072252--14072324 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 16
14072242 TTTTTCTCTA
*
14072252 TTTTT-ATTTTTAATT
1 TTTTTCATTTTTTATT
14072267 TTTTTCATTTTTCT-TAT
1 TTTTTCATTTTT-TAT-T
* *
14072284 TATTTCATTTTCTTTTT
1 TTTTTCATTTT-TTATT
14072301 TTTTTCATTTTTTTCATT
1 TTTTTCA-TTTTTT-ATT
14072319 TTTTTC
1 TTTTTC
14072325 TTGTTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.11
16 7 0.15
17 21 0.45
18 14 0.30
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCATTTTTTATT
Found at i:14072333 original size:10 final size:9
Alignment explanation
Indices: 14072258--14072324 Score: 70
Period size: 9 Copynumber: 7.7 Consensus size: 9
14072248 TCTATTTTTA
*
14072258 TTTTTAATT
1 TTTTTCATT
14072267 TTTTTCATT
1 TTTTTCATT
14072276 TTTCTT-A-T
1 TTT-TTCATT
*
14072284 TATTTCATT
1 TTTTTCATT
14072293 TTCTTT--TT
1 TT-TTTCATT
14072301 TTTTTCATT
1 TTTTTCATT
14072310 TTTTTCATT
1 TTTTTCATT
14072319 TTTTTC
1 TTTTTC
14072325 TTGTTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
7 5 0.10
8 8 0.16
9 31 0.63
10 5 0.10
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCATT
Found at i:14073284 original size:89 final size:88
Alignment explanation
Indices: 14073170--14073347 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 88
14073160 TAATGATTTG
* *
14073170 GATGGAAGAGAAAATGTAACGAAATGCATCAACTTACCTTTTATTAAAATGATAAAAAATGAAAT
1 GATGGAAGAGAAAATGTAACAAAATGCATCAACTTACCTTTTATTAAAATGATAAAAAATAAAAT
*
14073235 CTTATTACATAAAAGAAATCTTA
66 CTTATTACATAAAAAAAATCTTA
* * * *
14073258 GATGGAAGAGAAAAATGTAATAAAATGCATCAACTTGCTTTTTATTAAAATGCTAAAAAATAAAA
1 GATGGAAGAG-AAAATGTAACAAAATGCATCAACTTACCTTTTATTAAAATGATAAAAAATAAAA
14073323 TCTTATTACATAAAAAAAATCTTA
65 TCTTATTACATAAAAAAAATCTTA
14073347 G
1 G
14073348 CATTACTCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 10 0.12
89 72 0.88
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (88 bp):
GATGGAAGAGAAAATGTAACAAAATGCATCAACTTACCTTTTATTAAAATGATAAAAAATAAAAT
CTTATTACATAAAAAAAATCTTA
Found at i:14076480 original size:121 final size:118
Alignment explanation
Indices: 14076304--14076550 Score: 352
Period size: 121 Copynumber: 2.1 Consensus size: 118
14076294 TAATTTTGAA
* * *
14076304 ATTTTAAGGAAAATTAATATTTTCAACTTTTCCTCAAACTATATTTTTTGAAATTTTTATTTTTA
1 ATTTTAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATATTTTTTGAAATTTTTATTTTTA
*
14076369 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACCTTTTTTAAAAAT-TTT
66 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-ATTTTTTAAAAATCTTT
* *
14076422 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGATCTTTTTTGAAATTTTTATTT
1 ATTTT-AAGAAAAATTAATACTTTCAACTTTTCCTC-AAAAT-ATATTTTTTGAAATTTTTATTT
* * * **
14076487 TTAAGAAAAATTGATACTTTGAATTTTTCTTCAAAAATAATTTTTTTGAAATCTTT
63 TTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAATCTTT
14076543 ATTTTAAG
1 ATTTTAAG
14076551 GAGCTCAACA
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
118 5 0.04
119 27 0.24
120 17 0.15
121 65 0.57
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (118 bp):
ATTTTAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATATATTTTTTGAAATTTTTATTTTTA
AGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAAAAATCTTT
Found at i:14076501 original size:61 final size:60
Alignment explanation
Indices: 14076305--14076547 Score: 337
Period size: 60 Copynumber: 4.0 Consensus size: 60
14076295 AATTTTGAAA
* * * * *
14076305 TTTTAAGGAAAATTAATATTTTCAACTTTTCCTC-AAACTATATTTTTTGAAATTTTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTTTGAAATTTTTAT
* * *
14076364 TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATACCTTTTTTAAAAATTTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTTTGAAATTTTTAT
*
14076424 TTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATGATCTTTTTTGAAATTTTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATCTTTTTTGAAATTTTTAT
* * * *
14076485 TTTTAAGAAAAATTGATACTTTGAATTTTTCTTCAAAAATAAT-TTTTTTGAAATCTTTAT
1 TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATCTTTTTTGAAATTTTTAT
14076545 TTT
1 TTT
14076548 AAGGAGCTCA
Statistics
Matches: 164, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
59 31 0.19
60 78 0.48
61 55 0.34
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (60 bp):
TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTTTGAAATTTTTAT
Found at i:14078039 original size:21 final size:22
Alignment explanation
Indices: 14078006--14078054 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
14077996 TTTGGATTTA
*
14078006 TTTTTAGTATTGTTGGAG-AATT
1 TTTTTAATATTGTT-GAGTAATT
14078028 TTTTTAAT-TTGTTGAGTAATT
1 TTTTTAATATTGTTGAGTAATT
14078049 TATTTT
1 T-TTTT
14078055 TTATTTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.12
21 10 0.42
22 11 0.46
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.61
Consensus pattern (22 bp):
TTTTTAATATTGTTGAGTAATT
Found at i:14080082 original size:17 final size:20
Alignment explanation
Indices: 14080063--14080098 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
14080053 CTTTAAAAAT
14080063 AAATT-TAAAAA-TATAATA
1 AAATTATAAAAATTATAATA
14080081 AAATTATAAAAATTATAA
1 AAATTATAAAAATTATAA
14080099 AATAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.31
19 6 0.38
20 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAATTATAATA
Found at i:14080099 original size:17 final size:18
Alignment explanation
Indices: 14080063--14080101 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
14080053 CTTTAAAAAT
14080063 AAATTTAAAAATATAATA
1 AAATTTAAAAATATAATA
14080081 AAATTATAAAAAT-T-ATA
1 AAATT-TAAAAATATAATA
14080098 AAAT
1 AAAT
14080102 AATAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTTAAAAATATAATA
Found at i:14080203 original size:25 final size:25
Alignment explanation
Indices: 14080166--14080215 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14080156 TTTCGTAAGT
* * *
14080166 AAATCTATTGGTAATTGCCGATGGA
1 AAATCTATCGGTAATTACCAATGGA
*
14080191 AAATTTATCGGTAATTACCAATGGA
1 AAATCTATCGGTAATTACCAATGGA
14080216 GTTCAACTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (25 bp):
AAATCTATCGGTAATTACCAATGGA
Found at i:14082509 original size:15 final size:17
Alignment explanation
Indices: 14082483--14082520 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
14082473 ATATTTTTAG
*
14082483 ATAAAAATATTA-ATAA
1 ATAAAAATATTATACAA
14082499 ATAAAAA-ATTATACAA
1 ATAAAAATATTATACAA
14082515 ATAAAA
1 ATAAAA
14082521 TAATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATATTATACAA
Found at i:14082519 original size:20 final size:19
Alignment explanation
Indices: 14082494--14082544 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 19
14082484 TAAAAATATT
14082494 AATAAATAA-AAAATTATACA
1 AATAAATAATAAAA-TATA-A
14082514 AATAAAATAATAAAATATAA
1 AAT-AAATAATAAAATATAA
14082534 ATATAAATAAT
1 A-ATAAATAAT
14082545 CATTATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 12 0.43
21 12 0.43
22 4 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAATAATAAAATATAA
Found at i:14082532 original size:21 final size:21
Alignment explanation
Indices: 14082495--14082544 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
14082485 AAAAATATTA
14082495 ATAAATAA-AAAATTATACAA-
1 ATAAATAATAAAATTATA-AAT
14082515 ATAAAATAATAAAA-TATAAAT
1 AT-AAATAATAAAATTATAAAT
14082536 ATAAATAAT
1 ATAAATAAT
14082545 CATTATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 11 0.41
21 12 0.44
22 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAATAATAAAATTATAAAT
Found at i:14082552 original size:21 final size:19
Alignment explanation
Indices: 14082488--14082552 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
14082478 TTTAGATAAA
14082488 AATATTA-ATAAAT-AAA-
1 AATATTATATAAATAAAAT
*
14082504 AA-ATTATACAAATAAAAT
1 AATATTATATAAATAAAAT
**
14082522 AATAAAATATAAATATAAAT
1 AATATTATATAAATA-AAAT
14082542 AATCATTATAT
1 AAT-ATTATAT
14082553 TATTTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
15 4 0.11
16 7 0.19
17 3 0.08
18 2 0.05
19 9 0.24
20 7 0.19
21 5 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATTATATAAATAAAAT
Found at i:14086892 original size:2 final size:2
Alignment explanation
Indices: 14086885--14086915 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14086875 TTTACAGGGC
14086885 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14086916 CATCCTTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14092080 original size:3 final size:3
Alignment explanation
Indices: 14092072--14092107 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14092062 AAAGTTAATA
*
14092072 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14092108 AGCAATGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14092946 original size:12 final size:12
Alignment explanation
Indices: 14092896--14092965 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
14092886 TACTATATAA
14092896 ATATATATACAT
1 ATATATATACAT
*
14092908 TTATATATA-AT
1 ATATATATACAT
*
14092919 ATATGCATATATAT
1 ATAT--ATATACAT
14092933 ATATATATACAT
1 ATATATATACAT
* *
14092945 ATCTACATACAT
1 ATATATATACAT
*
14092957 ATGTATATA
1 ATATATATA
14092966 TTTTATATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
11 5 0.10
12 32 0.67
13 5 0.10
14 6 0.12
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (12 bp):
ATATATATACAT
Found at i:14092974 original size:2 final size:2
Alignment explanation
Indices: 14092889--14092966 Score: 59
Period size: 2 Copynumber: 39.5 Consensus size: 2
14092879 GGTAGGTTAC
* * * * *
14092889 TA TA TA AA TA TA TA TA CA TT TA TA TA TA -A TA TA TG CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
14092930 TA TA TA TA TA TA CA TA TC TA CA TA CA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14092967 TTTATATAAT
Statistics
Matches: 55, Mismatches: 20, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:14094413 original size:22 final size:20
Alignment explanation
Indices: 14094383--14094426 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14094373 ACAAATTCAC
*
14094383 AATTGAATTAAATTTAAAATTT
1 AATTCAATT-AATTT-AAATTT
14094405 AATTCAATTAATTTAAATTT
1 AATTCAATTAATTTAAATTT
14094425 AA
1 AA
14094427 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTCAATTAATTTAAATTT
Found at i:14094420 original size:27 final size:27
Alignment explanation
Indices: 14094382--14094433 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
14094372 AACAAATTCA
14094382 CAATTGAATTAAATTTAAAATTTAATT
1 CAATTGAATTAAATTTAAAATTTAATT
*
14094409 CAATT-AATTTAAATTTAAATTTTAA
1 CAATTGAA-TTAAATTTAAAATTTAA
14094434 AATATAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
CAATTGAATTAAATTTAAAATTTAATT
Found at i:14094762 original size:3 final size:3
Alignment explanation
Indices: 14094754--14094785 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14094744 TCAAGCCTCA
14094754 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14094786 ATTTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14095485 original size:17 final size:17
Alignment explanation
Indices: 14095449--14095484 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
14095439 TATTTATTTT
14095449 AAACATTAAAAATTATA
1 AAACATTAAAAATTATA
*
14095466 AAACATT-AAATTTATA
1 AAACATTAAAAATTATA
14095482 AAA
1 AAA
14095485 AAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
AAACATTAAAAATTATA
Found at i:14096383 original size:15 final size:16
Alignment explanation
Indices: 14096359--14096391 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14096349 TCCATTCATG
*
14096359 TATAATTTTTA-ATGA
1 TATAAATTTTATATGA
14096374 TATAAATTTTATATGA
1 TATAAATTTTATATGA
14096390 TA
1 TA
14096392 GTTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATAAATTTTATATGA
Found at i:14096493 original size:23 final size:22
Alignment explanation
Indices: 14096466--14096509 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14096456 AATATAATTA
* *
14096466 AATTTGTTTATAAATATTAAACG
1 AATTTATTTACAAATA-TAAACG
14096489 AATTTATTTACAAATATAAAC
1 AATTTATTTACAAATATAAAC
14096510 AAATCAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (22 bp):
AATTTATTTACAAATATAAACG
Found at i:14096633 original size:21 final size:21
Alignment explanation
Indices: 14096591--14096633 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14096581 GTTAAGTTTA
*
14096591 ATAAATAAACCAAAAACGAAT
1 ATAAATAAACCAAAAACAAAT
*
14096612 ATAAATAAA-TAAAAATCAAAT
1 ATAAATAAACCAAAAA-CAAAT
14096633 A
1 A
14096634 AGTTCACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (21 bp):
ATAAATAAACCAAAAACAAAT
Found at i:14097303 original size:22 final size:21
Alignment explanation
Indices: 14097251--14097303 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
14097241 ATAGAAGTCA
* *
14097251 TACT-ATTAATTTAAATAAAT
1 TACTAATTAATATAAAAAAAT
14097271 TA-TAATATAATATAAAAATAAT
1 TACTAAT-TAATATAAAAA-AAT
14097293 TACTAATTAAT
1 TACTAATTAAT
14097304 TTATATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 9 0.33
22 9 0.33
23 4 0.15
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
TACTAATTAATATAAAAAAAT
Found at i:14104295 original size:2 final size:2
Alignment explanation
Indices: 14104288--14104314 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14104278 GACAACTTCC
14104288 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14104315 AAAGTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14112151 original size:1 final size:1
Alignment explanation
Indices: 14112145--14112180 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
14112135 TGAATTCAAT
* *
14112145 AAAAAAAAAAAAAAAAAAAAACAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14112181 GAAGCAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14125482 original size:24 final size:24
Alignment explanation
Indices: 14125431--14125489 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
14125421 ATGAAACAAT
* * *
14125431 TTATATTTTCATTTTTATGTATTT
1 TTATATTTTTATTTTTATGTACTA
14125455 TTATATTTTTATTTATTAT-TACTA
1 TTATATTTTTATTT-TTATGTACTA
14125479 TTATATATTTT
1 TTATAT-TTTT
14125490 TAAGATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (24 bp):
TTATATTTTTATTTTTATGTACTA
Found at i:14125653 original size:17 final size:17
Alignment explanation
Indices: 14125609--14125655 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
14125599 TAATTATATT
*
14125609 ATTATT-ATTA-TGGTT
1 ATTATTAATTATTGGTA
*
14125624 ATCATTAATTTATTGGTA
1 ATTATTAA-TTATTGGTA
14125642 ATTATTAATTATTG
1 ATTATTAATTATTG
14125656 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
16 1 0.04
17 9 0.35
18 11 0.42
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (17 bp):
ATTATTAATTATTGGTA
Found at i:14126139 original size:22 final size:22
Alignment explanation
Indices: 14126103--14126145 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14126093 CAATTATAAA
14126103 ATTTTATAAAAATTTTCAATTTG
1 ATTTTATAAAAATTTT-AATTTG
*
14126126 ATTTT-TAAACATTTTAATTT
1 ATTTTATAAAAATTTTAATTT
14126146 TTTATTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTATAAAAATTTTAATTTG
Found at i:14128438 original size:29 final size:28
Alignment explanation
Indices: 14128421--14128481 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
14128411 AATAAATATA
*
14128421 AAATCATACCATGCAATAAATCATGCAAT
1 AAATCATACCATGCAATAAATAAT-CAAT
*
14128450 AAATCATACCATGCAATAAATCATACAAT
1 AAATCATACCATGCAATAAATAAT-CAAT
14128479 AAA
1 AAA
14128482 ATATTATGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (28 bp):
AAATCATACCATGCAATAAATAATCAAT
Found at i:14128443 original size:17 final size:17
Alignment explanation
Indices: 14128421--14128475 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
14128411 AATAAATATA
14128421 AAATCATACCATGCAAT
1 AAATCATACCATGCAAT
14128438 -AA--AT--CATGCAAT
1 AAATCATACCATGCAAT
14128450 AAATCATACCATGCAAT
1 AAATCATACCATGCAAT
14128467 AAATCATAC
1 AAATCATAC
14128476 AATAAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.24
13 2 0.06
14 2 0.06
15 2 0.06
16 2 0.06
17 17 0.52
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (17 bp):
AAATCATACCATGCAAT
Found at i:14128447 original size:12 final size:12
Alignment explanation
Indices: 14128430--14128506 Score: 55
Period size: 12 Copynumber: 5.8 Consensus size: 12
14128420 AAAATCATAC
14128430 CATGCAATAAAT
1 CATGCAATAAAT
14128442 CATGCAATAAATCAT
1 CATGCAAT-AA--AT
14128457 ACCATGCAATAAAT
1 --CATGCAATAAAT
*
14128471 CATACAATAAAATAT
1 CATGCAAT--AA-AT
* *
14128486 TATGTAATAAAT
1 CATGCAATAAAT
14128498 CATGCAATA
1 CATGCAATA
14128507 TAGTACCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
12 24 0.47
13 4 0.08
14 4 0.08
15 9 0.18
16 2 0.04
17 8 0.16
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (12 bp):
CATGCAATAAAT
Found at i:14128521 original size:27 final size:26
Alignment explanation
Indices: 14128426--14128524 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 26
14128416 ATATAAAATC
14128426 ATACCATGCAATAAATCATGCAATAAAT
1 ATACCATGCAATAAATCATGCAAT--AT
* *
14128454 CATACCATGCAATAAATCATACAATAAA
1 -ATACCATGCAATAAATCATGCAAT-AT
** *
14128482 ATATTATGTAATAAATCATGCAATAT
1 ATACCATGCAATAAATCATGCAATAT
14128508 AGTACCATGCAATAAAT
1 A-TACCATGCAATAAAT
14128525 ATAATATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 32 0.54
28 2 0.03
29 23 0.39
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.27
Consensus pattern (26 bp):
ATACCATGCAATAAATCATGCAATAT
Found at i:14128683 original size:20 final size:20
Alignment explanation
Indices: 14128660--14128697 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14128650 ATGCGAATAG
14128660 ATTAACCATGCAAATATAAT
1 ATTAACCATGCAAATATAAT
*
14128680 ATTAATCATGCAAATATA
1 ATTAACCATGCAAATATA
14128698 CTATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (20 bp):
ATTAACCATGCAAATATAAT
Found at i:14128713 original size:20 final size:20
Alignment explanation
Indices: 14128670--14128737 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
14128660 ATTAACCATG
* * *
14128670 CAAATATAATATTAATCATG
1 CAAATATACTATAAATCATA
**
14128690 CAAATATACTATAAATTGTA
1 CAAATATACTATAAATCATA
* * *
14128710 CAAAAATATTATTAATCATA
1 CAAATATACTATAAATCATA
14128730 CAAATATA
1 CAAATATA
14128738 AATCACACAA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (20 bp):
CAAATATACTATAAATCATA
Found at i:14128828 original size:20 final size:20
Alignment explanation
Indices: 14128803--14128847 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
14128793 GCAATCATGT
* *
14128803 AATATATTAATGATCATTCA
1 AATATATTAATAATCATGCA
*
14128823 AATATATTAGTAATCATGCA
1 AATATATTAATAATCATGCA
14128843 AATAT
1 AATAT
14128848 TATCAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (20 bp):
AATATATTAATAATCATGCA
Found at i:14130414 original size:18 final size:16
Alignment explanation
Indices: 14130382--14130416 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
14130372 TGACTAAAAC
14130382 AAAATTAAACAAAATT
1 AAAATTAAACAAAATT
14130398 AAAATTAAAATCAAAATT
1 AAAATT-AAA-CAAAATT
14130416 A
1 A
14130417 TAAAAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTAAACAAAATT
Found at i:14130428 original size:21 final size:20
Alignment explanation
Indices: 14130404--14130452 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
14130394 AATTAAAATT
14130404 AAAATCAAAATTATAAAAACC
1 AAAATCAAAATTA-AAAAACC
* *
14130425 AAAATCCAAATTAAAAAATC
1 AAAATCAAAATTAAAAAACC
*
14130445 AAAGTCAA
1 AAAATCAA
14130453 GACCAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAATCAAAATTAAAAAACC
Found at i:14135483 original size:21 final size:20
Alignment explanation
Indices: 14135459--14135513 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 20
14135449 GGAGTGACAT
14135459 GTCTTCAAGCCTTTGAGTTAA
1 GTCTTCAA-CCTTTGAGTTAA
14135480 GTCTTCAACCCTTTGAGTTAA
1 GTCTTCAA-CCTTTGAGTTAA
14135501 GTCTTCAACCTTT
1 GTCTTCAACCTTT
14135514 TTATTGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (20 bp):
GTCTTCAACCTTTGAGTTAA
Found at i:14139833 original size:36 final size:36
Alignment explanation
Indices: 14139793--14139866 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
14139783 GTAGCCATTC
14139793 ATTAAATTT-TGGTAACCTCT-TAATATAATTTTAGTA
1 ATTAAATTTCTGGTAA-CT-TATAATATAATTTTAGTA
* * *
14139829 ATTAACTTTCTGGTAACTTATGATATACTTTTAGTA
1 ATTAAATTTCTGGTAACTTATAATATAATTTTAGTA
14139865 AT
1 AT
14139867 CATTGATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.03
36 26 0.79
37 6 0.18
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (36 bp):
ATTAAATTTCTGGTAACTTATAATATAATTTTAGTA
Found at i:14140267 original size:21 final size:21
Alignment explanation
Indices: 14140207--14140355 Score: 104
Period size: 22 Copynumber: 6.9 Consensus size: 21
14140197 TGATATGTTG
14140207 CTAAATTATCAATGATTTACTA
1 CTAAATTAT-AATGATTTACTA
* * *
14140229 CTAAGTTAGCATTGATTTACTA
1 CTAAATTA-TAATGATTTACTA
*
14140251 CTAATTTATAATGATTTACTA
1 CTAAATTATAATGATTTACTA
* *
14140272 -TTAAGTATGAATGATTTACTA
1 CTAAATTAT-AATGATTTACTA
* * ** *
14140293 TTAAATTATTGATGATTTGTTG
1 CTAAATTA-TAATGATTTACTA
* *
14140315 CTAAATTACTGATGATTTATTA
1 CTAAATTA-TAATGATTTACTA
14140337 -TAAAGTTATAACTGATTTA
1 CTAAA-TTATAA-TGATTTA
14140356 TTAATATTTT
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
20 5 0.05
21 29 0.29
22 66 0.65
23 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (21 bp):
CTAAATTATAATGATTTACTA
Found at i:14140308 original size:43 final size:44
Alignment explanation
Indices: 14140207--14140310 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 44
14140197 TGATATGTTG
* *
14140207 CTAAATTATCAATGATTTACTACTAAGTTAGCATTGATTTACTA
1 CTAAATTATTAATGATTTACTACTAAGTTAGCAATGATTTACTA
* *
14140251 CTAATTTA-TAATGATTTACTATTAAG-TATG-AATGATTTACTA
1 CTAAATTATTAATGATTTACTACTAAGTTA-GCAATGATTTACTA
* *
14140293 TTAAATTATTGATGATTT
1 CTAAATTATTAATGATTT
14140311 GTTGCTAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 19 0.37
43 25 0.49
44 7 0.14
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.45
Consensus pattern (44 bp):
CTAAATTATTAATGATTTACTACTAAGTTAGCAATGATTTACTA
Found at i:14140389 original size:22 final size:22
Alignment explanation
Indices: 14140329--14140397 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
14140319 ATTACTGATG
* *
14140329 ATTTATTATAAAGTTAT-AACTG
1 ATTTATTAAAAAGTTATCAA-TA
* ** *
14140351 ATTTATTAATATTTTATCGATA
1 ATTTATTAAAAAGTTATCAATA
14140373 ATTTATTAAAAAGTTATCAATA
1 ATTTATTAAAAAGTTATCAATA
14140395 ATT
1 ATT
14140398 AACTAATTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTATTAAAAAGTTATCAATA
Found at i:14140429 original size:22 final size:22
Alignment explanation
Indices: 14140403--14140520 Score: 85
Period size: 22 Copynumber: 5.4 Consensus size: 22
14140393 TAATTAACTA
*
14140403 ATTTACTACTAAATTATTATTG
1 ATTTACTACTAAATTATTAATG
* * *
14140425 ATTTACAACTAAGTTATTAGTG
1 ATTTACTACTAAATTATTAATG
* ** * *
14140447 ATTTACTACGAAGCTATCAATA
1 ATTTACTACTAAATTATTAATG
**
14140469 ATTTAC-ATCTAAATTACAAATG
1 ATTTACTA-CTAAATTATTAATG
* ** *
14140491 ATTTACTATTATTTTATTATTG
1 ATTTACTACTAAATTATTAATG
14140513 ATTTACTA
1 ATTTACTA
14140521 ATTAGTTTTC
Statistics
Matches: 73, Mismatches: 21, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
21 1 0.01
22 71 0.97
23 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAATG
Found at i:14140451 original size:44 final size:44
Alignment explanation
Indices: 14140403--14140518 Score: 106
Period size: 44 Copynumber: 2.6 Consensus size: 44
14140393 TAATTAACTA
* ** *
14140403 ATTTACTACTAAATTATTATTGATTTACAACTAAGTTATTAGTG
1 ATTTACTACTAAATTATTATTGATTTACAACTAAATTACAAATG
* ** * * * *
14140447 ATTTACTACGAAGCTATCAATAATTTACATCTAAATTACAAATG
1 ATTTACTACTAAATTATTATTGATTTACAACTAAATTACAAATG
* **
14140491 ATTTACTATTATTTTATTATTGATTTAC
1 ATTTACTACTAAATTATTATTGATTTAC
14140519 TAATTAGTTT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (44 bp):
ATTTACTACTAAATTATTATTGATTTACAACTAAATTACAAATG
Found at i:14152320 original size:51 final size:52
Alignment explanation
Indices: 14152161--14152517 Score: 251
Period size: 51 Copynumber: 7.1 Consensus size: 52
14152151 TAAAGAAACT
* * * * * * * **
14152161 CATTTCTTGTTTTAAATTTTTTAAAGTCATTGAGCCTTTGGTTAGATGAACC
1 CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
* * * * * *
14152213 CATTTCATATTTT-AAGGTTTTAAAGTTATAGAGCCTCTAGATAAAAGAG-C
1 CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
* *
14152263 TTATTTCATATTTTAAAGTTTTTAAAGTT-TTGAGCCTCTAGTTAGAGGAG-C
1 -CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
* * *
14152314 ACATTTCCTATTTTATAG--TCT----TTA---AGCCTCAAGTTAGAGGAGTC
1 -CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
* * * * * * *
14152358 CATTTTCTATTTTAAAGTTTCTAAAGTTGTTGAGCATCTGGCTAAAGGAGTC
1 CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
* * * * *
14152410 TATTTCCTAATTTAAAG-TTTTAAAGTTATTAAGTCTCTAGTTAGATGAGTC
1 CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
* * * *
14152461 TATTTCCTAATTTAAAGTTTTTAAAGTTATTGTGCCT-TTGCTTAGAGGAGT-
1 CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAG-TTAGAGGAGTC
14152512 CATTTC
1 CATTTC
14152518 TTAATCCATT
Statistics
Matches: 240, Mismatches: 50, Indels: 31
0.75 0.16 0.10
Matches are distributed among these distances:
43 32 0.13
44 1 0.00
45 5 0.02
49 4 0.02
50 1 0.00
51 119 0.50
52 78 0.32
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (52 bp):
CATTTCCTATTTTAAAGTTTTTAAAGTTATTGAGCCTCTAGTTAGAGGAGTC
Found at i:14152343 original size:43 final size:42
Alignment explanation
Indices: 14152282--14152377 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 42
14152272 ATTTTAAAGT
* *
14152282 TTTTAAAGTTTTGAGCCTCTAGTTAGAGGAG-CACATTTCCTA
1 TTTTAAAGTTTTAAGCCTCAAGTTAGAGGAGTC-CATTTCCTA
* *
14152324 TTTTATAGTCTTTAAGCCTCAAGTTAGAGGAGTCCATTTTCTA
1 TTTTAAAGT-TTTAAGCCTCAAGTTAGAGGAGTCCATTTCCTA
14152367 TTTTAAAGTTT
1 TTTTAAAGTTT
14152378 CTAAAGTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 10 0.21
43 36 0.77
44 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (42 bp):
TTTTAAAGTTTTAAGCCTCAAGTTAGAGGAGTCCATTTCCTA
Found at i:14152466 original size:146 final size:146
Alignment explanation
Indices: 14152215--14152484 Score: 332
Period size: 146 Copynumber: 1.8 Consensus size: 146
14152205 GATGAACCCA
* * *
14152215 TTTCATATTTTAAGGTTTTAAAGTTATAGAGCCTCTAGATAAAAGAGCTTATTTCATATTTTAAA
1 TTTCATATTTTAAAGTTTTAAAGTTATAGAGCATCTAGATAAAAGAGCTTATTTCATAATTTAAA
* * *
14152280 GTTTTTAAAGTTTTGAGCCTCTAGTTAGAGGAGCACATTTCCTATTTTATAGTCTTTAAGCCTCA
66 GTTTTTAAAGTTTTAAGCCTCTAGTTAGAGGAGCACATTTCCTAATTTAAAGTCTTTAAGCCTCA
14152345 AGTTAGAGGAGTCCAT
131 AGTTAGAGGAGTCCAT
* * * * * *
14152361 TTTC-TATTTTAAAGTTTCTAAAGTTGTTGAGCATCTGGCTAAAGGAG-TCTATTTCCTAATTTA
1 TTTCATATTTTAAAGTTT-TAAAGTTATAGAGCATCTAGATAAAAGAGCT-TATTTCATAATTTA
* * * *
14152424 AAG-TTTTAAAGTTATTAAGTCTCTAGTTAGATGAGTC-TATTTCCTAATTTAAAGTTTTTAA
64 AAGTTTTTAAAGTT-TTAAGCCTCTAGTTAGAGGAG-CACATTTCCTAATTTAAAGTCTTTAA
14152485 AGTTATTGTG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
145 23 0.22
146 80 0.77
147 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (146 bp):
TTTCATATTTTAAAGTTTTAAAGTTATAGAGCATCTAGATAAAAGAGCTTATTTCATAATTTAAA
GTTTTTAAAGTTTTAAGCCTCTAGTTAGAGGAGCACATTTCCTAATTTAAAGTCTTTAAGCCTCA
AGTTAGAGGAGTCCAT
Found at i:14152506 original size:52 final size:53
Alignment explanation
Indices: 14152338--14152522 Score: 193
Period size: 52 Copynumber: 3.6 Consensus size: 53
14152328 ATAGTCTTTA
* * * * * *
14152338 AGCCTCAAG-TTAGAGGAGTCCATTTTCTATTTTAAAGTTTCTAAAGTTGTTG
1 AGCCTCTAGCTTAGAGGAGTCTATTTCCTAATTTAAAGTTTTTAAAGTTATTG
* * * *
14152390 AGCATCTGGC-TAAAGGAGTCTATTTCCTAATTTAAAG-TTTTAAAGTTATTA
1 AGCCTCTAGCTTAGAGGAGTCTATTTCCTAATTTAAAGTTTTTAAAGTTATTG
* *
14152441 AGTCTCTAG-TTAGATGAGTCTATTTCCTAATTTAAAGTTTTTAAAGTTATTG
1 AGCCTCTAGCTTAGAGGAGTCTATTTCCTAATTTAAAGTTTTTAAAGTTATTG
* * *
14152493 TGCCT-TTGCTTAGAGGAGTC-ATTTCTTAAT
1 AGCCTCTAGCTTAGAGGAGTCTATTTCCTAAT
14152523 CCATTTTTTA
Statistics
Matches: 108, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
51 53 0.49
52 55 0.51
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (53 bp):
AGCCTCTAGCTTAGAGGAGTCTATTTCCTAATTTAAAGTTTTTAAAGTTATTG
Found at i:14154034 original size:16 final size:18
Alignment explanation
Indices: 14154015--14154050 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14154005 GTAAAACCTT
14154015 ATAAA-TTTAA-AAAAAA
1 ATAAATTTTAAGAAAAAA
14154031 ATAAATTTTAAGAAAAAA
1 ATAAATTTTAAGAAAAAA
14154049 AT
1 AT
14154051 TAGTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAAATTTTAAGAAAAAA
Found at i:14154161 original size:11 final size:10
Alignment explanation
Indices: 14154145--14154228 Score: 52
Period size: 10 Copynumber: 8.2 Consensus size: 10
14154135 ACAAAATATG
14154145 AAATACAGAAA
1 AAATACA-AAA
14154156 AAATACCAAAA
1 AAATA-CAAAA
14154167 ATAATACAAAA
1 A-AATACAAAA
14154178 TATAA-A-AAAA
1 -A-AATACAAAA
*
14154188 TACAAAACAAAA
1 -A-AATACAAAA
*
14154200 AAATACCAAA
1 AAATACAAAA
14154210 AAA-AC-AAA
1 AAATACAAAA
14154218 AAATA-AAAA
1 AAATACAAAA
14154227 AA
1 AA
14154229 TCGAGGATGG
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
8 6 0.10
9 8 0.13
10 18 0.29
11 17 0.27
12 14 0.22
ACGTcount: A:0.77, C:0.11, G:0.01, T:0.11
Consensus pattern (10 bp):
AAATACAAAA
Found at i:14154201 original size:17 final size:16
Alignment explanation
Indices: 14154163--14154228 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
14154153 AAAAAATACC
*
14154163 AAAAATAATACAAAATA
1 AAAAAAAATACAAAA-A
*
14154180 TAAAAAAATAC-AAAA
1 AAAAAAAATACAAAAA
*
14154195 CAAAAAAATACCAAAAA
1 AAAAAAAATA-CAAAAA
14154212 AACAAAAAATA-AAAAA
1 AA-AAAAAATACAAAAA
14154228 A
1 A
14154229 TCGAGGATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.24
16 10 0.24
17 14 0.33
18 8 0.19
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAAATACAAAAA
Found at i:14154210 original size:33 final size:33
Alignment explanation
Indices: 14154162--14154227 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
14154152 GAAAAAATAC
* *
14154162 CAAAAATAATACAAAATATA-AAAAAATACAAAA
1 CAAAAATAATACAAAA-AAACAAAAAATAAAAAA
14154195 CAAAAA-AATACCAAAAAAACAAAAAATAAAAAA
1 CAAAAATAATA-CAAAAAAACAAAAAATAAAAAA
14154228 ATCGAGGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (33 bp):
CAAAAATAATACAAAAAAACAAAAAATAAAAAA
Found at i:14154228 original size:18 final size:19
Alignment explanation
Indices: 14154191--14154228 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14154181 AAAAAAATAC
**
14154191 AAAACAAAAAAATACCAAA
1 AAAACAAAAAAATAAAAAA
14154210 AAAAC-AAAAAATAAAAAA
1 AAAACAAAAAAATAAAAAA
14154228 A
1 A
14154229 TCGAGGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (19 bp):
AAAACAAAAAAATAAAAAA
Found at i:14155230 original size:17 final size:19
Alignment explanation
Indices: 14155207--14155258 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
14155197 TTGAATTTTT
*
14155207 TATTTTTTTATATATT-AT
1 TATTTTTTTATATATTAAG
14155225 TATTTTTGTTAT-T-TTAAG
1 TATTTTT-TTATATATTAAG
14155243 TATTTTTTTATATATT
1 TATTTTTTTATATATT
14155259 GATGCATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.21
18 17 0.59
19 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TATTTTTTTATATATTAAG
Found at i:14155673 original size:17 final size:17
Alignment explanation
Indices: 14155648--14155681 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14155638 GTTTCTAAAT
*
14155648 CCCCCTAAAATTCAAAA
1 CCCCCTAAAATCCAAAA
*
14155665 CCCCTTAAAATCCAAAA
1 CCCCCTAAAATCCAAAA
14155682 TCCTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (17 bp):
CCCCCTAAAATCCAAAA
Found at i:14166340 original size:17 final size:17
Alignment explanation
Indices: 14166320--14166354 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14166310 ATTTAAATCA
*
14166320 TTTTTTTATTATTAGAC
1 TTTTTTTATAATTAGAC
14166337 TTTTTTTATAATTAGAC
1 TTTTTTTATAATTAGAC
14166354 T
1 T
14166355 ACAAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTTTTATAATTAGAC
Found at i:14171822 original size:8 final size:8
Alignment explanation
Indices: 14171811--14171852 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
14171801 TTAAAAATAA
14171811 AAAAAATC
1 AAAAAATC
14171819 AAAAAAT-
1 AAAAAATC
**
14171826 AGCAAATC
1 AAAAAATC
14171834 AAAAAATC
1 AAAAAATC
14171842 -AAAAATC
1 AAAAAATC
14171849 AAAA
1 AAAA
14171853 TCAAAATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.43
8 16 0.57
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:14171822 original size:15 final size:15
Alignment explanation
Indices: 14171811--14171852 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
14171801 TTAAAAATAA
14171811 AAAAAATCAAAAAAT
1 AAAAAATCAAAAAAT
**
14171826 AGCAAATCAAAAAAT
1 AAAAAATCAAAAAAT
*
14171841 CAAAAATCAAAA
1 AAAAAATCAAAA
14171853 TCAAAATTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAAAATCAAAAAAT
Found at i:14172712 original size:12 final size:13
Alignment explanation
Indices: 14172686--14172714 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14172676 AAAAACAAAC
14172686 AAAATAAAACATA
1 AAAATAAAACATA
14172699 AAAATAAAAC-TA
1 AAAATAAAACATA
14172711 AAAA
1 AAAA
14172715 CCAAAAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAACATA
Found at i:14174546 original size:22 final size:22
Alignment explanation
Indices: 14174505--14174685 Score: 104
Period size: 22 Copynumber: 8.3 Consensus size: 22
14174495 TAGTAATCTT
* *
14174505 TAATAACTTAATAATTAATCAA
1 TAATAACTTAATAGTAAATCAA
14174527 TAATAACTTAATAGTAAATC-A
1 TAATAACTTAATAGTAAATCAA
* * * * *
14174548 TGGATAATTTAGTAGTAAATTAG
1 T-AATAACTTAATAGTAAATCAA
*
14174571 TAATAACTTAATAGTAAATGAA
1 TAATAACTTAATAGTAAATCAA
* * *
14174593 -AGATAATTTAGTAGTCAAT-AA
1 TA-ATAACTTAATAGTAAATCAA
* * *
14174614 TTGATAAC-TAAGTAATACATCAA
1 -TAATAACTTAA-TAGTAAATCAA
* *
14174637 TAATAACAT-ATAGT-AATACCA
1 TAATAACTTAATAGTAAAT-CAA
* *
14174658 TAATAATTTAATCGTAAATCAA
1 TAATAACTTAATAGTAAATCAA
*
14174680 TTATAA
1 TAATAA
14174686 TATAGCTGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
20 2 0.02
21 19 0.16
22 90 0.76
23 7 0.06
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (22 bp):
TAATAACTTAATAGTAAATCAA
Found at i:14174621 original size:44 final size:44
Alignment explanation
Indices: 14174527--14174622 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 44
14174517 AATTAATCAA
** *
14174527 TAATAACTTAATAGTAAATCATGGATAATTTAGTAGTAAATTAG
1 TAATAACTTAATAGTAAATCAAAGATAATTTAGTAGTAAATAAG
* * *
14174571 TAATAACTTAATAGTAAATGAAAGATAATTTAGTAGTCAATAAT
1 TAATAACTTAATAGTAAATCAAAGATAATTTAGTAGTAAATAAG
*
14174615 TGATAACT
1 TAATAACT
14174623 AAGTAATACA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (44 bp):
TAATAACTTAATAGTAAATCAAAGATAATTTAGTAGTAAATAAG
Found at i:14174655 original size:24 final size:22
Alignment explanation
Indices: 14174617--14174664 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
14174607 TCAATAATTG
14174617 ATAACTAAGTAATA-CATCAATA
1 ATAACTAAGTAATACCAT-AATA
14174639 ATAACATATAGTAATACCATAATA
1 ATAAC-TA-AGTAATACCATAATA
14174663 AT
1 AT
14174665 TTAATCGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 2 0.09
24 13 0.57
25 3 0.13
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAACTAAGTAATACCATAATA
Found at i:14174875 original size:22 final size:22
Alignment explanation
Indices: 14174786--14174914 Score: 95
Period size: 22 Copynumber: 6.0 Consensus size: 22
14174776 TAAATCATAA
* *
14174786 ATAACTTAGTGGTAAATCAAGG
1 ATAACTTAGTAGTAAATCAATG
**
14174808 ATAACTTA-T--TAAAAAAAGTG
1 ATAACTTAGTAGTAAATCAA-TG
* * * *
14174828 ATAACTTAGTAGTTAATTATTA
1 ATAACTTAGTAGTAAATCAATG
*
14174850 ATAACTTAGTAATAAATCAATG
1 ATAACTTAGTAGTAAATCAATG
* * *
14174872 ATAACTTAATAGTAAATTAGTG
1 ATAACTTAGTAGTAAATCAATG
*
14174894 ATAA-TTTGATAGTAAATCAAT
1 ATAACTTAG-TAGTAAATCAAT
14174915 CTTGATTTAA
Statistics
Matches: 81, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
19 6 0.07
20 9 0.11
21 4 0.05
22 58 0.72
23 4 0.05
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATCAATG
Found at i:14174910 original size:44 final size:44
Alignment explanation
Indices: 14174826--14174914 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
14174816 TTAAAAAAAG
* * *
14174826 TGATAACTTAGTAGTTAATTATTAATAACTTAGTAATAAATCAA
1 TGATAACTTAATAGTAAATTAGTAATAACTTAGTAATAAATCAA
* * *
14174870 TGATAACTTAATAGTAAATTAGTGATAA-TTTGATAGTAAATCAA
1 TGATAACTTAATAGTAAATTAGTAATAACTTAG-TAATAAATCAA
14174914 T
1 T
14174915 CTTGATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATTAGTAATAACTTAGTAATAAATCAA
Found at i:14175072 original size:22 final size:22
Alignment explanation
Indices: 14175047--14175099 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14175037 ATTAATAGAG
*
14175047 AATAGTTAACTAGT-GATAACTT
1 AATAGTAAACTA-TAGATAACTT
* *
14175069 AATAGTAAATTATAGATAATTT
1 AATAGTAAACTATAGATAACTT
14175091 AATAGTAAA
1 AATAGTAAA
14175100 TCGATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (22 bp):
AATAGTAAACTATAGATAACTT
Found at i:14175109 original size:22 final size:22
Alignment explanation
Indices: 14175061--14175110 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
14175051 GTTAACTAGT
* *
14175061 GATAACTTAATAGTAAATTATA
1 GATAATTTAATAGTAAATGATA
14175083 GATAATTTAATAGTAAATCGATA
1 GATAATTTAATAGTAAAT-GATA
14175106 -ATAAT
1 GATAAT
14175111 GTTATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (22 bp):
GATAATTTAATAGTAAATGATA
Found at i:14175161 original size:22 final size:22
Alignment explanation
Indices: 14175136--14175210 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
14175126 AAAAAATTAG
14175136 GTAGTAAATCAATGATAATATA
1 GTAGTAAATCAATGATAATATA
* * *
14175158 GTAGTAAATAAAATAATAA-ACA
1 GTAGTAAAT-CAATGATAATATA
* * * *
14175180 ATAGTTAATCATTGATAATTTA
1 GTAGTAAATCAATGATAATATA
14175202 GTAGTAAAT
1 GTAGTAAAT
14175211 TGATAGCATT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 6 0.15
22 26 0.67
23 7 0.18
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (22 bp):
GTAGTAAATCAATGATAATATA
Found at i:14175538 original size:22 final size:22
Alignment explanation
Indices: 14175301--14175554 Score: 86
Period size: 22 Copynumber: 11.5 Consensus size: 22
14175291 CAAATTGGTT
* *
14175301 AATCAATGATAATTTTATAATA
1 AATCAATGATAATTTAATAGTA
* * * *
14175323 AATTACTGATAAATTAGTAGTA
1 AATCAATGATAATTTAATAGTA
* * * * * *
14175345 AATTAGTTACAACATT-ATAATA
1 AATCAATGATAA-TTTAATAGTA
* * *
14175367 AATC-ATCGATAACTTAGTAGTG
1 AATCAAT-GATAATTTAATAGTA
* *
14175389 AATC-ATCAATAAATTAATAGTA
1 AATCAAT-GATAATTTAATAGTA
* * * *
14175411 AATCATTTATAACTTAATGGTA
1 AATCAATGATAATTTAATAGTA
* * * * *
14175433 TATCATTCATAATTTACTGGTA
1 AATCAATGATAATTTAATAGTA
* * * *
14175455 AATCATTCAAAAATTAGA-AGTA
1 AATCAATGATAATTTA-ATAGTA
*
14175477 AATC-ATGGATAATTTATTAGTA
1 AATCAAT-GATAATTTAATAGTA
* * * *
14175499 AATTATTGACAATATAATAGTA
1 AATCAATGATAATTTAATAGTA
* *
14175521 AATCAATGATAATTTAATTGTC
1 AATCAATGATAATTTAATAGTA
*
14175543 AATCATTGATAA
1 AATCAATGATAA
14175555 CTTTTTTATA
Statistics
Matches: 171, Mismatches: 53, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.02
22 162 0.95
23 5 0.03
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.37
Consensus pattern (22 bp):
AATCAATGATAATTTAATAGTA
Found at i:14176216 original size:15 final size:15
Alignment explanation
Indices: 14176192--14176288 Score: 65
Period size: 15 Copynumber: 6.3 Consensus size: 15
14176182 AAAAAATCAA
*
14176192 TTTTAGGGTTTCGGG
1 TTTTAAGGTTTCGGG
14176207 TTTTAAGGTTTCGAGG
1 TTTTAAGGTTTCG-GG
* *
14176223 TTTT-AGAGCTTAGGG
1 TTTTAAG-GTTTCGGG
*
14176238 TTTT-AGTGTTTCGAG
1 TTTTAAG-GTTTCGGG
* *
14176253 TTTT-AGGATTTTGAGA
1 TTTTAAGG-TTTCG-GG
*
14176269 TTTTAAGGTTTAGGG
1 TTTTAAGGTTTCGGG
14176284 TTTTA
1 TTTTA
14176289 CGATTTTTAG
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.02
15 43 0.66
16 18 0.28
17 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTTAAGGTTTCGGG
Found at i:14176243 original size:8 final size:8
Alignment explanation
Indices: 14176192--14176328 Score: 61
Period size: 8 Copynumber: 17.5 Consensus size: 8
14176182 AAAAAATCAA
14176192 TTTTAGGG
1 TTTTAGGG
*
14176200 -TTTCGGG
1 TTTTAGGG
*
14176207 TTTTAAGG
1 TTTTAGGG
*
14176215 -TTTCGAGG
1 TTTTAG-GG
*
14176223 TTTTAGAG
1 TTTTAGGG
*
14176231 -CTTAGGG
1 TTTTAGGG
*
14176238 TTTTAGTG
1 TTTTAGGG
* *
14176246 -TTTCGAG
1 TTTTAGGG
*
14176253 TTTTAGGA
1 TTTTAGGG
*
14176261 TTTT-GAGA
1 TTTTAG-GG
*
14176269 TTTTAAGG
1 TTTTAGGG
14176277 -TTTAGGG
1 TTTTAGGG
**
14176284 TTTTACGAT
1 TTTTA-GGG
14176293 TTTTAGGG
1 TTTTAGGG
*
14176301 TTTTGGGG
1 TTTTAGGG
*
14176309 TTTTAAGG
1 TTTTAGGG
*
14176317 TTTCAGGG
1 TTTTAGGG
14176325 TTTT
1 TTTT
14176329 TACTTATGAG
Statistics
Matches: 91, Mismatches: 29, Indels: 18
0.66 0.21 0.13
Matches are distributed among these distances:
7 26 0.29
8 55 0.60
9 10 0.11
ACGTcount: A:0.16, C:0.04, G:0.31, T:0.49
Consensus pattern (8 bp):
TTTTAGGG
Found at i:14176273 original size:46 final size:46
Alignment explanation
Indices: 14176192--14176288 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
14176182 AAAAAATCAA
* *
14176192 TTTTAGGGTTTCGGGTTTTAAGGTTTCGAGGTTTT-AGAGCTTAGGG
1 TTTTAGGGTTTCGAGTTTTAAGGTTTCGAGATTTTAAG-GCTTAGGG
* * *
14176238 TTTTAGTGTTTCGAGTTTT-AGGATTTTGAGATTTTAAGGTTTAGGG
1 TTTTAGGGTTTCGAGTTTTAAGG-TTTCGAGATTTTAAGGCTTAGGG
14176284 TTTTA
1 TTTTA
14176289 CGATTTTTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
45 3 0.07
46 39 0.89
47 2 0.05
ACGTcount: A:0.18, C:0.04, G:0.30, T:0.48
Consensus pattern (46 bp):
TTTTAGGGTTTCGAGTTTTAAGGTTTCGAGATTTTAAGGCTTAGGG
Found at i:14176312 original size:17 final size:17
Alignment explanation
Indices: 14176277--14176330 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
14176267 GATTTTAAGG
* *
14176277 TTTAGGGTTTTACGATT
1 TTTAGGGTTTTAGGGTT
*
14176294 TTTAGGGTTTT-GGGGT
1 TTTAGGGTTTTAGGGTT
* *
14176310 TTTAAGGTTTCAGGGTT
1 TTTAGGGTTTTAGGGTT
14176327 TTTA
1 TTTA
14176331 CTTATGAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 11 0.37
17 19 0.63
ACGTcount: A:0.15, C:0.04, G:0.30, T:0.52
Consensus pattern (17 bp):
TTTAGGGTTTTAGGGTT
Found at i:14182576 original size:21 final size:21
Alignment explanation
Indices: 14182533--14182577 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14182523 ATCAATCACT
* *
14182533 TTTAGAATTTTTGGAATTAAA
1 TTTAAAATTTTAGGAATTAAA
* *
14182554 TTTAAAATTTTAGGTATTTAA
1 TTTAAAATTTTAGGAATTAAA
14182575 TTT
1 TTT
14182578 CACATAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (21 bp):
TTTAAAATTTTAGGAATTAAA
Found at i:14187765 original size:15 final size:15
Alignment explanation
Indices: 14187756--14187804 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
14187746 TTTATATAAT
14187756 TTTTTATTATTAACA
1 TTTTTATTATTAACA
14187771 TTTTTATTATTAA-A
1 TTTTTATTATTAACA
* *
14187785 TTCTTATTTATTAAAA
1 TTTTTA-TTATTAACA
14187801 TTTT
1 TTTT
14187805 AATAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 6 0.20
15 20 0.67
16 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTATTATTAACA
Found at i:14187782 original size:71 final size:70
Alignment explanation
Indices: 14187706--14187852 Score: 183
Period size: 71 Copynumber: 2.1 Consensus size: 70
14187696 TAAAAATAAG
* * *
14187706 TTATTAAAATAC-CTTTAATAAAATTTTTAATAAATTTTAATTTATATAATTTTTT-ATTATTAA
1 TTATTAAAATACTATTTAATAAAA-TTTTAATAAATTTTAATTTAAATAATTTTTTAACTATTAA
14187769 CATTTTT
65 -ATTTTT
* * *
14187776 ATTATT-AAATTCTTATTTATTAAAATTTTAATAAATTTTAATTTAAATGATTTTTTAACTATTA
1 -TTATTAAAATAC-TATTTAATAAAATTTTAATAAATTTTAATTTAAATAATTTTTTAACTATTA
14187840 AATTTTT
64 AATTTTT
14187847 TTATTA
1 TTATTA
14187853 TTATCAAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
70 10 0.15
71 40 0.61
72 16 0.24
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (70 bp):
TTATTAAAATACTATTTAATAAAATTTTAATAAATTTTAATTTAAATAATTTTTTAACTATTAAA
TTTTT
Found at i:14189522 original size:26 final size:26
Alignment explanation
Indices: 14189470--14189533 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
14189460 TTAACCTTAG
*
14189470 TTTTTTAATTATT--ATTTG-TTTTT
1 TTTTTTAATTCTTGGATTTGTTTTTT
14189493 TTTTTTAATTTCTTGGATTT-TTTTTAT
1 TTTTTTAA-TTCTTGGATTTGTTTTT-T
14189520 TTTTTTAATTCTTG
1 TTTTTTAATTCTTG
14189534 AAAAACTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 8 0.23
24 4 0.11
26 14 0.40
27 9 0.26
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (26 bp):
TTTTTTAATTCTTGGATTTGTTTTTT
Found at i:14190577 original size:23 final size:23
Alignment explanation
Indices: 14190536--14190601 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
14190526 TAAAATTTGG
* * *
14190536 GTACTAGCTAATCTGGGCTTAAA
1 GTACTAACTAAACTAGGCTTAAA
*
14190559 GTGCTAACTAAACTAGGCTTAAA
1 GTACTAACTAAACTAGGCTTAAA
* *
14190582 GTACTAGCTAATCTAGGCTT
1 GTACTAACTAAACTAGGCTT
14190602 GAGTGTCATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (23 bp):
GTACTAACTAAACTAGGCTTAAA
Found at i:14190581 original size:52 final size:50
Alignment explanation
Indices: 14190492--14190682 Score: 124
Period size: 52 Copynumber: 3.8 Consensus size: 50
14190482 TAGTACCATG
* * * ** *
14190492 TAATCTGGGTTTGAAGCGCTAACTAAACCGGGTTTAAAATTTGGGTACTAGC
1 TAATCTGGGCTTAAAGTGCTAACTAAACTAGGCTT-AAATTT-GGTACTAGC
14190544 TAATCTGGGCTTAAAGTGCTAACTAAACTAGGCTTAAA----GTACTAGC
1 TAATCTGGGCTTAAAGTGCTAACTAAACTAGGCTTAAATTTGGTACTAGC
* * * * * * * *
14190590 TAATCTAGGCTT-GAGTG-TCATCTAATCTGGGCTTAAAATTTAAGTGCTAAC
1 TAATCTGGGCTTAAAGTGCT-AACTAAACTAGGCTT-AAATTT-GGTACTAGC
* ** * *
14190641 TAATCTGGGCCTAAAGTGCTCGCTAAATTATGCTTAAATTTG
1 TAATCTGGGCTTAAAGTGCTAACTAAACTAGGCTTAAATTTG
14190683 AGTGCCAACT
Statistics
Matches: 107, Mismatches: 23, Indels: 20
0.71 0.15 0.13
Matches are distributed among these distances:
44 1 0.01
45 16 0.15
46 22 0.21
51 25 0.23
52 42 0.39
53 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (50 bp):
TAATCTGGGCTTAAAGTGCTAACTAAACTAGGCTTAAATTTGGTACTAGC
Found at i:14190657 original size:23 final size:23
Alignment explanation
Indices: 14190543--14190660 Score: 87
Period size: 23 Copynumber: 4.9 Consensus size: 23
14190533 TGGGTACTAG
14190543 CTAATCTGGGCTTAAAGTGCTAA
1 CTAATCTGGGCTTAAAGTGCTAA
* * * *
14190566 CTAAACTAGGCTTAAAGTACTAG
1 CTAATCTGGGCTTAAAGTGCTAA
* * *
14190589 CTAATCTAGGCTT-GAGTG-TCAT
1 CTAATCTGGGCTTAAAGTGCT-AA
14190611 CTAATCTGGGCTTAAAATTTAAGTGCTAA
1 CTAATCTGGGCTT---A---AAGTGCTAA
*
14190640 CTAATCTGGGCCTAAAGTGCT
1 CTAATCTGGGCTTAAAGTGCT
14190661 CGCTAAATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
21 1 0.01
22 16 0.22
23 38 0.51
26 1 0.01
29 17 0.23
30 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (23 bp):
CTAATCTGGGCTTAAAGTGCTAA
Found at i:14190717 original size:30 final size:31
Alignment explanation
Indices: 14190683--14190742 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
14190673 CTTAAATTTG
* * *
14190683 AGTGCCAACTAATCTAG-CTTGAATCTTATT
1 AGTGCCAACTAAACCAGACTTAAATCTTATT
*
14190713 AGTGCCAGCTAAACCAGACTTAAATCTTAT
1 AGTGCCAACTAAACCAGACTTAAATCTTAT
14190743 CATGTATCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (31 bp):
AGTGCCAACTAAACCAGACTTAAATCTTATT
Found at i:14194065 original size:44 final size:44
Alignment explanation
Indices: 14193991--14194084 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
14193981 AATCATCAAC
*
14193991 AATTTAGTACTAAATCATTCATAAATTAATAATAAACTAATGAT
1 AATTTAGTACTAAATCATTCATAAATTAATAATAAACTAATAAT
* * * *
14194035 AGTTTAGTAGTAAATCATTTATAACA-TAATAATAAATTAATAAT
1 AATTTAGTACTAAATCATTCATAA-ATTAATAATAAACTAATAAT
14194079 AATTTA
1 AATTTA
14194085 ATTGTCAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.38
Consensus pattern (44 bp):
AATTTAGTACTAAATCATTCATAAATTAATAATAAACTAATAAT
Found at i:14194086 original size:22 final size:22
Alignment explanation
Indices: 14194011--14194086 Score: 53
Period size: 22 Copynumber: 3.5 Consensus size: 22
14194001 TAAATCATTC
* * *
14194011 ATAAATTAATAATAAACTAATG
1 ATAATTTAATAATAAATTAATA
* * * * * *
14194033 ATAGTTTAGTAGTAAATCATTT
1 ATAATTTAATAATAAATTAATA
**
14194055 ATAACATAATAATAAATTAATA
1 ATAATTTAATAATAAATTAATA
14194077 ATAATTTAAT
1 ATAATTTAAT
14194087 TGTCAGTTAT
Statistics
Matches: 36, Mismatches: 18, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAATAAATTAATA
Found at i:14194411 original size:22 final size:22
Alignment explanation
Indices: 14194383--14194432 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
14194373 ATAAATTACT
14194383 AAAATTACATGAAA-AGGTTATC
1 AAAATTACA-GAAAGAGGTTATC
*
14194405 AAAATTACAGAAAGGGGTTATC
1 AAAATTACAGAAAGAGGTTATC
14194427 AAAATT
1 AAAATT
14194433 TTGCAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (22 bp):
AAAATTACAGAAAGAGGTTATC
Found at i:14194678 original size:3 final size:3
Alignment explanation
Indices: 14194670--14194704 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
14194660 GCATATTACC
*
14194670 TAT TAT TAT TAT TAT TAT T-T TTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14194705 ATCTAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:14198095 original size:33 final size:33
Alignment explanation
Indices: 14197925--14198095 Score: 84
Period size: 33 Copynumber: 5.2 Consensus size: 33
14197915 CATTTATAAC
* * * *
14197925 TGAAAATACCGCTACTTTAGAGGCGTTTGTATT
1 TGAAAACACTGCTACTTTAGAGGCATTTGTATA
* *
14197958 TGAAAATGC-CT-CTA-TATTAGCGGCATTTGTATCTT
1 TGAAAA--CACTGCTACT-TTAGAGGCATTTGTA--TA
* * * * *
14197993 TG-AGACGCCGCTAATTTAGTGGCATTT-TATGA
1 TGAAAACACTGCTACTTTAGAGGCATTTGTAT-A
* * * * * *
14198025 TAAAAACACTGTTGCTTTGGTGGCGTTTGTA-A
1 TGAAAACACTGCTACTTTAGAGGCATTTGTATA
14198057 CTGAAAACACTGCTACTTTAGAGGCATTTGTATA
1 -TGAAAACACTGCTACTTTAGAGGCATTTGTATA
14198091 TGAAA
1 TGAAA
14198096 TTTTAGCAGC
Statistics
Matches: 102, Mismatches: 23, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 72 0.71
34 20 0.20
35 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (33 bp):
TGAAAACACTGCTACTTTAGAGGCATTTGTATA
Found at i:14198197 original size:125 final size:128
Alignment explanation
Indices: 14197840--14198314 Score: 465
Period size: 134 Copynumber: 3.6 Consensus size: 128
14197830 TGTCGCCATC
* * * * * ** * * * *
14197840 TTAGCGGCGTTTCTATATTTGAAACGTCGCTAAATTAGTTACATTTTTATAAGAAAAACACCATT
1 TTAGCGGCGTTTGTATCTTTGAGACGCCGCTAATTTAGTGGC-TTTTTATGAGAAAAAAATCGTT
* * * * *
14197905 GCTTTGGTGGCATTTATAACTGAAAATACCGCTACTTTAGAGGCGTTTGTATTTGAAAATGCCTC
65 GCTTTGGTGGCATTTGTAAATGAAAACACCGCTACTTTAGAGGCATTTGTATATGAAAA-----C
14197970 TATA
125 TATA
* * * *
14197974 TTAGCGGCATTTGTATCTTTGAGACGCCGCTAATTTAGTGGCATTTTATGATAAAAACA-CTGTT
1 TTAGCGGCGTTTGTATCTTTGAGACGCCGCTAATTTAGTGGCTTTTTATGAGAAAAAAATC-GTT
* * *
14198038 GCTTTGGTGGCGTTTGTAACTGAAAACACTGCTACTTTAGAGGCATTTGTATATG-AAA-T-T-
65 GCTTTGGTGGCATTTGTAAATGAAAACACCGCTACTTTAGAGGCATTTGTATATGAAAACTATA
* * * * **
14198098 TTAGCAGCGTTTGTATCTTTGAGACGCGGCTAATTTAGTGACGTTTTTATGAGGAAAATGTCGTT
1 TTAGCGGCGTTTGTATCTTTGAGACGCCGCTAATTTAGTGGC-TTTTTATGAGAAAAAAATCGTT
* ** *
14198163 GCTTTGGTAGCATTTGTAAATGAAAATGCCGCTACTTTAGAGGCATTTGTATCTGAAAACGCCTT
65 GCTTTGGTGGCATTTGTAAATGAAAACACCGCTACTTTAGAGGCATTTGTATATGAAAA---C-T
14198228 CATA
126 -ATA
* * *
14198232 TTAGCGGCGTTTATATCTTTGAGACGCCGTTAATTTAGTGGCATTTTTATGAGAAAAACATCGTT
1 TTAGCGGCGTTTGTATCTTTGAGACGCCGCTAATTTAGTGGC-TTTTTATGAGAAAAAAATCGTT
14198297 GCTTTGGTGGCATTTGTA
65 GCTTTGGTGGCATTTGTA
14198315 TAAAAAATGC
Statistics
Matches: 285, Mismatches: 44, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
124 38 0.13
125 64 0.22
126 5 0.02
131 1 0.00
132 4 0.01
133 66 0.23
134 107 0.38
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (128 bp):
TTAGCGGCGTTTGTATCTTTGAGACGCCGCTAATTTAGTGGCTTTTTATGAGAAAAAAATCGTTG
CTTTGGTGGCATTTGTAAATGAAAACACCGCTACTTTAGAGGCATTTGTATATGAAAACTATA
Found at i:14207607 original size:22 final size:23
Alignment explanation
Indices: 14207574--14207625 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
14207564 GCCTTCAATA
14207574 ATTTTTTAAGAATTATGAAAGGC
1 ATTTTTTAAGAATTATGAAAGGC
14207597 ATTTTTT-AGAATTATGAAAGGC
1 ATTTTTTAAGAATTATGAAAGGC
14207619 ATTTTTT
1 ATTTTTT
14207626 GATGAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (23 bp):
ATTTTTTAAGAATTATGAAAGGC
Found at i:14208403 original size:14 final size:15
Alignment explanation
Indices: 14208382--14208422 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
14208372 CTGAACCTTG
14208382 TTGTCTGATATTGTT
1 TTGTCTGATATTGTT
*
14208397 TTG-CTGA-ATGGTT
1 TTGTCTGATATTGTT
*
14208410 TTGTATGATATTG
1 TTGTCTGATATTG
14208423 GGGGGCTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 8 0.38
14 7 0.33
15 6 0.29
ACGTcount: A:0.17, C:0.05, G:0.24, T:0.54
Consensus pattern (15 bp):
TTGTCTGATATTGTT
Found at i:14208442 original size:40 final size:39
Alignment explanation
Indices: 14208319--14208450 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 39
14208309 GATATTGTTT
14208319 TGCTGAATGGTTTTGTATGATATTGGGGCCTGAATCATA
1 TGCTGAATGGTTTTGTATGATATTGGGGCCTGAATCATA
** * ** *
14208358 TGCTGAATGG--TT-TACTGA-ACCTTGTTGTCTGATATTGTTT
1 TGCTGAATGGTTTTGTA-TGATA--TTGGGGCCTGA-A-TCATA
*
14208398 TGCTGAATGGTTTTGTATGATATTGGGGGGCTGAATCATA
1 TGCTGAATGGTTTTGTATGATATT-GGGGCCTGAATCATA
14208438 TGCTGAATGGTTT
1 TGCTGAATGGTTT
14208451 GCTGAATAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
36 3 0.04
37 5 0.07
38 8 0.11
39 11 0.15
40 27 0.38
41 3 0.04
42 11 0.15
43 3 0.04
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (39 bp):
TGCTGAATGGTTTTGTATGATATTGGGGCCTGAATCATA
Found at i:14208454 original size:24 final size:25
Alignment explanation
Indices: 14208427--14208481 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
14208417 ATATTGGGGG
*
14208427 GCTGAATCATA-TGCTGAATGGTTT
1 GCTGAATAATATTGCTGAATGGTTT
* *
14208451 GCTGAATAATATTTCTGAGTGGTTT
1 GCTGAATAATATTGCTGAATGGTTT
*
14208476 ACTGAA
1 GCTGAA
14208482 GGGTGTGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (25 bp):
GCTGAATAATATTGCTGAATGGTTT
Found at i:14208468 original size:79 final size:79
Alignment explanation
Indices: 14208131--14208456 Score: 419
Period size: 79 Copynumber: 4.2 Consensus size: 79
14208121 CCTTAATATT
* * * * *
14208131 ATGGTTTGCTGAACCTTATTGTCTAAT-TTTTTTTG-TCAAATGGTATTGTATGATATTAGGGGT
1 ATGGTTTGCTGAACCTTATTGTCTGATATTGTTTTGCT-GAATGGTATTGTATGATATTGGGGGC
* *
14208194 TGAATCGTATACTGA
65 TGAATCATATGCTGA
* * * * *
14208209 ATGGTTTGCTGAACCTTGTTGTATAATATTGTATTAC-GAATGGTATTGTATGATATT-GGGGCT
1 ATGGTTTGCTGAACCTTATTGTCTGATATTGTTTTGCTGAATGGTATTGTATGATATTGGGGGCT
14208272 GAATCATATG-TGA
66 GAATCATATGCTGA
* * * * *
14208285 ATAGTTTGCTAAACCTTATTATCTGATATTGTTTTGCTGAATGGTTTTGTATGATATTGGGGCCT
1 ATGGTTTGCTGAACCTTATTGTCTGATATTGTTTTGCTGAATGGTATTGTATGATATTGGGGGCT
14208350 GAATCATATGCTGA
66 GAATCATATGCTGA
* * *
14208364 ATGGTTTACTGAACCTTGTTGTCTGATATTGTTTTGCTGAATGGTTTTGTATGATATTGGGGGGC
1 ATGGTTTGCTGAACCTTATTGTCTGATATTGTTTTGCTGAATGGTATTGTATGATATT-GGGGGC
14208429 TGAATCATATGCTGA
65 TGAATCATATGCTGA
14208444 ATGGTTTGCTGAA
1 ATGGTTTGCTGAA
14208457 TAATATTTCT
Statistics
Matches: 216, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
76 32 0.15
77 32 0.15
78 59 0.27
79 61 0.28
80 32 0.15
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (79 bp):
ATGGTTTGCTGAACCTTATTGTCTGATATTGTTTTGCTGAATGGTATTGTATGATATTGGGGGCT
GAATCATATGCTGA
Found at i:14212475 original size:304 final size:301
Alignment explanation
Indices: 14211841--14212481 Score: 736
Period size: 303 Copynumber: 2.1 Consensus size: 301
14211831 GAAAATTTTG
** * *
14211841 AAGGTGTTTTTAACC-AAATCGCCTTTGATAATCACACTAAAAATTAATTGTATGGAATATTAAA
1 AAGGTG-TTTTAACCAAAATCGCCTTCAATAATCCCACCAAAAATTAATTGTATGGAATATTAAA
* * ** *
14211905 GGCATTTTGGAAAAAAAAATACCTTCAAGAATCCGTTGCACCTTTTTTGTATGGATTATTGAAGG
65 GGCATTTTGGAAAAAAAAACACCTTCAAGAATCCATTGCACCTTTTTTGTATAAATTATTAAAGG
** * * *
14211970 CATTTTTTTAAATGCCTTCAATAAAACCAACTAAAAATTAATCTAATGGAATATAAAGGGCGTTT
130 CATTTTTAAAAATACCTTCAATAAAACCAACTAAAAATTAATCGAATGGAATATAAAGGGCATTT
* * * *
14212035 TCCTACGGGTAACACCTTTAATAATCCCTAACAAAATGTTATTAAAGGCGTTTCTGGATATAATC
195 TCCTACGGGTAACACATTGAATAATCCCTAACAAAATGTTATTAAAGGCGTTTATGGAAATAATC
* * *
14212100 GCCTTTAATAATCCGACCATCAAATTTACCATCTGGAATAATA
260 GCCTTCAATAATCCGACCATAAAATTTA-CATCTAGAATAATA
* * * * *
14212143 ATGGCAT-TTTTTACGAAAATCGCCTTCAATAATCCCACCAAAAATTTATTGTGTGGAATATTAA
1 AAGG--TGTTTTAACCAAAATCGCCTTCAATAATCCCACCAAAAATTAATTGTATGGAATATTAA
* ** **
14212207 AGGCGTTTTGG-GCAAAAAACACCTTCAAGAATCCATCT-CGTCTTTTTTGTATAAATTATTAAA
64 AGGCATTTTGGAAAAAAAAACACCTTCAAGAATCCAT-TGCACCTTTTTTGTATAAATTATTAAA
* * * * *
14212270 TGCATTTTTAAAAAATACCTTTAATAATACCAACTAAAAATTAATCGAATGGATTATGAAGGGCA
128 GGCATTTTT-AAAAATACCTTCAATAAAACCAACTAAAAATTAATCGAATGGAATATAAAGGGCA
* * * * *
14212335 TTTTCCTAAGGGGTAACGCATTGAATAATCCCTAACAAAATTTTATTGAAGGTGTTTATGGAAAT
192 TTTTCCT-ACGGGTAACACATTGAATAATCCCTAACAAAATGTTATTAAAGGCGTTTATGGAAAT
**
14212400 AA-CTGCCTTCAATAATCCGACCATTAAAAGTTT-CATCTAGAATCTTA
256 AATC-GCCTTCAATAATCCGACCA-TAAAA-TTTACATCTAGAATAATA
* *
14212447 AAGGTGTTTTAAGCCAAAAACGCCTTCAATCATCC
1 AAGGTGTTTTAA-CCAAAATCGCCTTCAATAATCC
14212482 GTTCAAACTT
Statistics
Matches: 280, Mismatches: 48, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
302 59 0.21
303 112 0.40
304 102 0.36
305 4 0.01
306 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (301 bp):
AAGGTGTTTTAACCAAAATCGCCTTCAATAATCCCACCAAAAATTAATTGTATGGAATATTAAAG
GCATTTTGGAAAAAAAAACACCTTCAAGAATCCATTGCACCTTTTTTGTATAAATTATTAAAGGC
ATTTTTAAAAATACCTTCAATAAAACCAACTAAAAATTAATCGAATGGAATATAAAGGGCATTTT
CCTACGGGTAACACATTGAATAATCCCTAACAAAATGTTATTAAAGGCGTTTATGGAAATAATCG
CCTTCAATAATCCGACCATAAAATTTACATCTAGAATAATA
Found at i:14214469 original size:21 final size:21
Alignment explanation
Indices: 14214443--14214484 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14214433 CGAAGAAAAG
14214443 TATTTATAATAAAAATATATA
1 TATTTATAATAAAAATATATA
*
14214464 TATTTATAATAACAATATATA
1 TATTTATAATAAAAATATATA
14214485 AATAGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTATAATAAAAATATATA
Found at i:14214693 original size:20 final size:20
Alignment explanation
Indices: 14214668--14214769 Score: 118
Period size: 20 Copynumber: 5.0 Consensus size: 20
14214658 TATAAGTAAA
14214668 TTTTGATAAATTTTGATAAC
1 TTTTGATAAATTTTGATAAC
**
14214688 TTTTGATATCTTTTGATAATCC
1 TTTTGATAAATTTTGATAA--C
*
14214710 TTCTT-A-AAAATTTGATAAC
1 TT-TTGATAAATTTTGATAAC
*
14214729 TTTTGATAAATTTTTATAAC
1 TTTTGATAAATTTTGATAAC
14214749 TTTTGATACAATTTTGATAAC
1 TTTTGATA-AATTTTGATAAC
14214770 CTTCACTACA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.03
19 4 0.06
20 36 0.53
21 20 0.29
22 4 0.06
23 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (20 bp):
TTTTGATAAATTTTGATAAC
Found at i:14214765 original size:11 final size:10
Alignment explanation
Indices: 14214664--14214768 Score: 88
Period size: 10 Copynumber: 10.3 Consensus size: 10
14214654 ATAATATAAG
14214664 TAAATTTTGA
1 TAAATTTTGA
14214674 TAAATTTTGA
1 TAAATTTTGA
*
14214684 TAACTTTTGA
1 TAAATTTTGA
**
14214694 TATCTTTTGA
1 TAAATTTTGA
*
14214704 T-AATCCTTCTTA
1 TAAAT--TT-TGA
*
14214716 -AAAATTTGA
1 TAAATTTTGA
*
14214725 TAACTTTTGA
1 TAAATTTTGA
*
14214735 TAAATTTTTA
1 TAAATTTTGA
*
14214745 TAACTTTTGA
1 TAAATTTTGA
14214755 TACAATTTTGA
1 TA-AATTTTGA
14214766 TAA
1 TAA
14214769 CCTTCACTAC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
9 3 0.04
10 57 0.76
11 11 0.15
12 4 0.05
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (10 bp):
TAAATTTTGA
Found at i:14214765 original size:41 final size:41
Alignment explanation
Indices: 14214668--14214769 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
14214658 TATAAGTAAA
**
14214668 TTTTGATAAATTTTGATAACTTTTGATATCTTTTGATAATCC
1 TTTTGATAAATTTTGATAACTTTTGATAAATTTTGATAA-CC
* *
14214710 TTCTT-A-AAAATTTGATAACTTTTGATAAATTTTTATAA-C
1 TT-TTGATAAATTTTGATAACTTTTGATAAATTTTGATAACC
14214749 TTTTGATACAATTTTGATAAC
1 TTTTGATA-AATTTTGATAAC
14214770 CTTCACTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 2 0.04
39 4 0.08
40 1 0.02
41 39 0.76
42 3 0.06
43 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (41 bp):
TTTTGATAAATTTTGATAACTTTTGATAAATTTTGATAACC
Found at i:14215287 original size:158 final size:158
Alignment explanation
Indices: 14214999--14215310 Score: 394
Period size: 158 Copynumber: 2.0 Consensus size: 158
14214989 AGTGGAATTT
** ** *
14214999 ATAATGTAAATGCCACTAACAGGTGTTTTTGCACTTCTTAAAAAACCTTCAAAACACTAGAGAAA
1 ATAATGTAAACACCACTAACAGGCATTTTTGCACTCCTTAAAAAACCTTCAAAACACTAGAGAAA
* * * * * *
14215064 ATGATCGAACTTAGAACTTAATGGTTAATAGTCGTATGCTCTAACTAACTGAACTATTCTAGTGT
66 AGGATCGAACCTAGAACTTAATAGTTAATAGTCGTATGCTCTAACTAACTAAACTACTCCAGTGT
* *
14215129 TTTTAACAAAGGATTATTCAAGGTGTTC
131 TTTTAACAAAGAATTAGTCAAGGTGTTC
* *
14215157 ATAATGTAAACACCACTAACAGGCATTTTTGCACTCCTTAAAAAACCTTCACAACACTAGAGAGA
1 ATAATGTAAACACCACTAACAGGCATTTTTGCACTCCTTAAAAAACCTTCAAAACACTAGAGAAA
* * * * * *
14215222 GGGATTGAACCTAGGATCTT-ATAGTTAATAG-CTTTATGCTTTAACTGACTAAACTACTCCAGT
66 AGGATCGAACCTA-GAACTTAATAGTTAATAGTC-GTATGCTCTAACTAACTAAACTACTCCAGT
*
14215285 GTTTTTAGCAAAGAATTAGTCAAGGT
129 GTTTTTAACAAAGAATTAGTCAAGGT
14215311 ATTTTTAACC
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
157 1 0.01
158 124 0.95
159 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (158 bp):
ATAATGTAAACACCACTAACAGGCATTTTTGCACTCCTTAAAAAACCTTCAAAACACTAGAGAAA
AGGATCGAACCTAGAACTTAATAGTTAATAGTCGTATGCTCTAACTAACTAAACTACTCCAGTGT
TTTTAACAAAGAATTAGTCAAGGTGTTC
Found at i:14215580 original size:120 final size:121
Alignment explanation
Indices: 14215294--14215591 Score: 298
Period size: 120 Copynumber: 2.5 Consensus size: 121
14215284 TGTTTTTAGC
* * * * *
14215294 AAAGAATTAGTCAAGGTATTTTTAACCAAAAATACCTTGCATAATCCCCAATAAAAAATGAAAAC
1 AAAGGATTATTCAAGGCATTTTTGACCAAAAATACCTTGAATAAT-CCCAA-AAAAAATGAAAAC
* * * * * *
14215359 GATTATTCAATGTATTTTTTGCCAGAAACGCTTTGAATAACCCCATTCAATTTTTTGT
64 GATTATTCAAGGCATGTTTTGCCAGAAACACCTTGAATAACCCCATTCAATTTTTTCT
* * * * * * **
14215417 AAAGGATTATTTAATGCATTTTTGATCAAAAA-AGCTTTAAATAATCCC-AAAAAAAGGTAGGA-
1 AAAGGATTATTCAAGGCATTTTTGACCAAAAATA-CCTTGAATAATCCCAAAAAAAATG-AAAAC
* * *
14215479 GATTATTCAAGGCATGTTTTGCTAGAAAACACCTT-AATAATCCCTTTCAATTTTTTCT
64 GATTATTCAAGGCATGTTTTGCCAG-AAACACCTTGAATAACCCCATTCAATTTTTTCT
* **
14215537 AAAGGATTATTCAAGGCATTTTTGACCAAAAATATCTTGAATAATCTTAAAAAAA
1 AAAGGATTATTCAAGGCATTTTTGACCAAAAATACCTTGAATAATCCCAAAAAAA
14215592 TAAAAGAGAA
Statistics
Matches: 140, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
120 86 0.61
121 17 0.12
122 4 0.03
123 33 0.24
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (121 bp):
AAAGGATTATTCAAGGCATTTTTGACCAAAAATACCTTGAATAATCCCAAAAAAAATGAAAACGA
TTATTCAAGGCATGTTTTGCCAGAAACACCTTGAATAACCCCATTCAATTTTTTCT
Found at i:14215625 original size:120 final size:120
Alignment explanation
Indices: 14215346--14215628 Score: 279
Period size: 120 Copynumber: 2.4 Consensus size: 120
14215336 AATCCCCAAT
* * * * * * * *
14215346 AAAAAATGAAAA-CGATTATTCAATGTATTTTTTGCCAG-AAACGCTTTGAATAACCCCATTCAA
1 AAAAAAAGAAAAGAGATTATTCAAGGCATGTTTTGCTAGAAAACACCTT-AATAACCCCATTCAA
* * * *
14215409 TTTTTTGTAAAGGATTATTTAATGCATTTTTGATCAAAAAAGCTTTAAATAATCCC
65 TTTTTTCTAAAGGATTATTCAAGGCATTTTTGACCAAAAAAGCTTTAAATAATCCC
** * * *
14215465 AAAAAAAGGTAGGAGATTATTCAAGGCATGTTTTGCTAGAAAACACCTTAATAATCCCTTTCAAT
1 AAAAAAAGAAAAGAGATTATTCAAGGCATGTTTTGCTAGAAAACACCTTAATAACCCCATTCAAT
* * **
14215530 TTTTTCTAAAGGATTATTCAAGGCATTTTTGACCAAAAATATC-TTGAATAATCTT
66 TTTTTCTAAAGGATTATTCAAGGCATTTTTGACCAAAAA-AGCTTTAAATAATCCC
* * *
14215585 AAAAAAATAAAAGAGAATTATTGAAGGTGAT-TTTTG-TAGAAAAC
1 AAAAAAAGAAAAGAG-ATTATTCAAGG-CATGTTTTGCTAGAAAAC
14215629 GCCTCGAATA
Statistics
Matches: 132, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
119 8 0.06
120 98 0.74
121 24 0.18
122 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (120 bp):
AAAAAAAGAAAAGAGATTATTCAAGGCATGTTTTGCTAGAAAACACCTTAATAACCCCATTCAAT
TTTTTCTAAAGGATTATTCAAGGCATTTTTGACCAAAAAAGCTTTAAATAATCCC
Found at i:14215689 original size:60 final size:59
Alignment explanation
Indices: 14215575--14215699 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 59
14215565 AAAATATCTT
* * * *
14215575 GAATAATCTTAAAAAAATAAAAGAGAATTATTGAAGGTGATTTTTGTAGAAAACGCCTC
1 GAATAATCTTAAAAAAATAAAAAAGAATTATTCAAGGTGATTTTTGTACAAAACGACTC
*
14215634 GAATAATCTTAAAAAAAGTGAAAAAAG-ATTATTCAAGGTG-TTTTT-TACCAGAAACGACTT
1 GAATAATCTTAAAAAAA-T-AAAAAAGAATTATTCAAGGTGATTTTTGTA-CA-AAACGACTC
14215694 GAATAA
1 GAATAA
14215700 CCCCATTCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
58 2 0.04
59 23 0.40
60 26 0.46
61 6 0.11
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (59 bp):
GAATAATCTTAAAAAAATAAAAAAGAATTATTCAAGGTGATTTTTGTACAAAACGACTC
Found at i:14216189 original size:182 final size:181
Alignment explanation
Indices: 14215772--14216189 Score: 482
Period size: 182 Copynumber: 2.3 Consensus size: 181
14215762 TCTTTTTTTT
* * * **
14215772 AGATTATTCAAGGCATTTTTTTATAAAAAATATCTTGAATAATCTTTAAAAAAATTGAAAGAGAT
1 AGATTATTCAAGGCA-TTTTTTATCAAAAACACCTTGAATAATC-TCCAAAAAATTGAAAGAGAT
*** * * *
14215837 TATTCAAGGTTTTTTTGGCTAGAAACGTCTTAAATAACCTTATTCAACTTTTTGTAAGGGATTAC
64 TATTCAAGACATTTTTAGCTAGAAACGCCTTAAATAACCCTATTCAACTTTTTGTAAGGGATTAC
* ** * * *
14215902 TTAAGGCATTTTTTGGCCAAAAATCCCTTGAATAATCCCAAAAAAATGGGAGA
129 TTAAGGCATTTTCTGGCCAAAAATCCCTTGAATAATCAAAAAAAAATAGAAAA
* * * * *
14215955 AGATTATTGAAGGCGTTCTTTT-TCATAAAACGCCTTGAATAATTCCCCAAAAAA-TGAAAGGGA
1 AGATTATTCAAGGCATT-TTTTATCA-AAAACACCTTGAATAA-TCTCCAAAAAATTGAAAGAGA
* *
14216018 TTATTCAAGACATTTTTAGCTAGAAACGCCTTGAATAACCCTATTCAATTTTTTGTAAGGGATTA
63 TTATTCAAGACATTTTTAGCTAGAAACGCCTTAAATAACCCTATTCAACTTTTTGTAAGGGATTA
* * *
14216083 -TTCAATGTATTTTCTGGCCAAAAATGCCTTGAATAATCTAAAAAAAAATAGAAAA
128 CTT-AAGGCATTTTCTGGCCAAAAATCCCTTGAATAATC-AAAAAAAAATAGAAAA
* *
14216138 GAGATTATTCAAGGTATTTTTTACCAAAAACACCTTGAATAATCTCCAAAAA
1 -AGATTATTCAAGGCATTTTTTATCAAAAACACCTTGAATAATCTCCAAAAA
14216190 GAATTCAAGG
Statistics
Matches: 195, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
181 2 0.01
182 109 0.56
183 66 0.34
184 18 0.09
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (181 bp):
AGATTATTCAAGGCATTTTTTATCAAAAACACCTTGAATAATCTCCAAAAAATTGAAAGAGATTA
TTCAAGACATTTTTAGCTAGAAACGCCTTAAATAACCCTATTCAACTTTTTGTAAGGGATTACTT
AAGGCATTTTCTGGCCAAAAATCCCTTGAATAATCAAAAAAAAATAGAAAA
Found at i:14216223 original size:43 final size:43
Alignment explanation
Indices: 14216163--14216248 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
14216153 ATTTTTTACC
14216163 AAAAACACCTTGAATAATCTCCAAAAAGAATTCAAGGGGATTA
1 AAAAACACCTTGAATAATCTCCAAAAAGAATTCAAGGGGATTA
*
14216206 AAAAATACCTTGAATAATCTCCAAAAAGAATTCAAGGGGATTA
1 AAAAACACCTTGAATAATCTCCAAAAAGAATTCAAGGGGATTA
14216249 TTAAAGGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (43 bp):
AAAAACACCTTGAATAATCTCCAAAAAGAATTCAAGGGGATTA
Found at i:14217594 original size:34 final size:34
Alignment explanation
Indices: 14217555--14217625 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
14217545 GTAGCGATGC
14217555 TTTCTACTATAAACGCCACTAAATTTAGTGACAT
1 TTTCTACTATAAACGCCACTAAATTTAGTGACAT
* * *
14217589 TTTCTACTATAAATGCCTCTAAATTTAGTGGCAT
1 TTTCTACTATAAACGCCACTAAATTTAGTGACAT
14217623 TTT
1 TTT
14217626 ATGATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (34 bp):
TTTCTACTATAAACGCCACTAAATTTAGTGACAT
Found at i:14217876 original size:21 final size:21
Alignment explanation
Indices: 14217832--14217896 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
14217822 GTATTAATTA
* * *
14217832 TGATATAATTTTTGTAACCAT
1 TGATATAATTTTAGTAATCTT
*
14217853 TGATATAATTTTAATAATCTT
1 TGATATAATTTTAGTAATCTT
* *
14217874 TGATAAAATTGTAGTAAT-TT
1 TGATATAATTTTAGTAATCTT
14217894 TGA
1 TGA
14217897 AAACATTTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.48
Consensus pattern (21 bp):
TGATATAATTTTAGTAATCTT
Found at i:14217928 original size:21 final size:21
Alignment explanation
Indices: 14217904--14217944 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14217894 TGAAAACATT
14217904 TCATATAATTTT-GATAATTAA
1 TCATAT-ATTTTAGATAATTAA
*
14217925 TCATATATTTTAGGTAATTA
1 TCATATATTTTAGATAATTA
14217945 TTGATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (21 bp):
TCATATATTTTAGATAATTAA
Done.